Structure of PDB 6p4g Chain K

Receptor sequence

>6p4gK (length=185) Species: 9986 (Oryctolagus cuniculus)

PVARSWVCRKTYVTPRRPFEKSRLDQELKLIGEYGLRNKREVWRVKFTLA
KIRKAARELLTLDEKDPRRLFEGNALLRRLVRIGVLDEGKMKLDYILGLK
IEDFLERRLQTQVFKLGLAKSIHHARVLIRQRHIRVRKQVVNIPSFIVRL
DSQKHIDFSLRSPYGGGRPGRVKRKNAKKGQGGAG

3D structure

• PDB: 6p4g The Israeli acute paralysis virus IRES captures host ribosomes by mimicking a ribosomal state with hybrid tRNAs.
• Chain: K
• Resolution: 3.1 Å

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	rna	K	P2 V3 A4 R5 S6 W7 V8 C9 R10 K11 T12 Y13 T15 R17 R18 F20 K22 L25 R38 N39 K40 R41 R45 F72 E73 A76 R79 R80 K121 H125 R127 V128 R131 Q132 R133 H134 Q140 N143 I144 S146 F147 I148 R150 S153 R162 P164 R169 G171 R172 V173 K174 K176 N177	P1 V2 A3 R4 S5 W6 V7 C8 R9 K10 T11 Y12 T14 R16 R17 F19 K21 L24 R37 N38 K39 R40 R44 F71 E72 A75 R78 R79 K120 H124 R126 V127 R130 Q131 R132 H133 Q139 N142 I143 S145 F146 I147 R149 S152 R161 P163 R168 G170 R171 V172 K173 K175 N176

Gene Ontology

Molecular Function

• GO:0003723 RNA binding
• GO:0003735 structural constituent of ribosome
• GO:0019843 rRNA binding

Biological Process

• GO:0006412 translation
• GO:0042274 ribosomal small subunit biogenesis

Cellular Component

• GO:0005634 nucleus
• GO:0005730 nucleolus
• GO:0005737 cytoplasm
• GO:0005840 ribosome
• GO:0015935 small ribosomal subunit
• GO:0022626 cytosolic ribosome
• GO:0022627 cytosolic small ribosomal subunit
• GO:0043226 organelle
• GO:1990904 ribonucleoprotein complex

External links

• PDB: RCSB:6p4g, PDBe:6p4g, PDBj:6p4g
• PDBsum: 6p4g
• PubMed: 31609474
• UniProt: B7NZS8|RS9_RABIT Small ribosomal subunit protein uS4 (Gene Name=RPS9)